Human Gene ACTN3 (uc031qbp.1)
  Description: Homo sapiens actinin, alpha 3 (ACTN3), transcript variant 2, mRNA.
RefSeq Summary (NM_001258371): This gene encodes a member of the alpha-actin binding protein gene family. The encoded protein is primarily expressed in skeletal muscle and functions as a structural component of sarcomeric Z line. This protein is involved in crosslinking actin containing thin filaments. An allelic polymorphism in this gene results in both coding and non-coding variants; the reference genome represents the coding allele. The non-functional allele of this gene is associated with elite athlete status. [provided by RefSeq, Feb 2014].
Transcript (Including UTRs)
   Position: hg19 chr11:66,313,866-66,330,799 Size: 16,934 Total Exon Count: 22 Strand: +
Coding Region
   Position: hg19 chr11:66,313,982-66,330,664 Size: 16,683 Coding Exon Count: 22 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:66,313,866-66,330,799)mRNA (may differ from genome)Protein (944 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ACTN3
CDC HuGE Published Literature: ACTN3
Positive Disease Associations: aerobic exercise capacity , Alcoholism , endurance, elite , human elite athletic performance , muscle phenotypes , muscle strength , muscle testing
Related Studies:
  1. aerobic exercise capacity
    Lucia, A. et al. 2007, The 577X allele of the ACTN3 gene is associated with improved exercise capacity in women with McArdle's disease, Neuromuscul Disord 2007. [PubMed 17560787]
  2. Alcoholism
    , , . [PubMed 0]
  3. endurance, elite
    Yang, N. et al. 2003, ACTN3 genotype is associated with human elite athletic performance., American journal of human genetics. 2003 Sep;73(3):627-31. [PubMed 12879365]
    The differential effects in sprint and endurance athletes suggests that the R577X polymorphism may have been maintained in the human population by balancing natural selection.
           more ... click here to view the complete list

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 55.35 RPKM in Muscle - Skeletal
Total median expression: 64.43 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -30.60116-0.264 Picture PostScript Text
3' UTR -40.80135-0.302 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001589 - Actinin_actin-bd_CS
IPR001715 - CH-domain
IPR011992 - EF-hand-like_dom
IPR014837 - EF-hand_Ca_insen
IPR018249 - EF_HAND_2
IPR002048 - EF_hand_Ca-bd
IPR018159 - Spectrin/alpha-actinin
IPR002017 - Spectrin_repeat

Pfam Domains:
PF00307 - Calponin homology (CH) domain
PF00435 - Spectrin repeat
PF08726 - Ca2+ insensitive EF hand
PF11971 - CAMSAP CH domain

SCOP Domains:
47473 - EF-hand
47576 - Calponin-homology domain, CH-domain
46966 - Spectrin repeat

ModBase Predicted Comparative 3D Structure on B4DZQ2
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0005509 calcium ion binding


-  Descriptions from all associated GenBank mRNAs
  AK125851 - Homo sapiens cDNA FLJ43863 fis, clone TESTI4007778, highly similar to Alpha-actinin 3.
AK303044 - Homo sapiens cDNA FLJ58651 complete cds, highly similar to Alpha-actinin-3.
AK313556 - Homo sapiens cDNA, FLJ94117, highly similar to Homo sapiens actinin, alpha 3 (ACTN3), mRNA.
BC096323 - Homo sapiens actinin, alpha 3, mRNA (cDNA clone IMAGE:40008221), partial cds.
BC099647 - Homo sapiens actinin, alpha 3, mRNA (cDNA clone MGC:117002 IMAGE:40008220), complete cds.
BC099648 - Homo sapiens actinin, alpha 3, mRNA (cDNA clone IMAGE:40008222), partial cds.
BC099649 - Homo sapiens actinin, alpha 3, mRNA (cDNA clone MGC:117005 IMAGE:40008223), complete cds.
M86407 - Homo sapiens alpha actinin 3 (ACTN3) mRNA, complete cds.
JD500769 - Sequence 481793 from Patent EP1572962.
JD302208 - Sequence 283232 from Patent EP1572962.
JD188926 - Sequence 169950 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04510 - Focal adhesion
hsa04520 - Adherens junction
hsa04530 - Tight junction
hsa04670 - Leukocyte transendothelial migration
hsa04810 - Regulation of actin cytoskeleton
hsa05322 - Systemic lupus erythematosus
hsa05412 - Arrhythmogenic right ventricular cardiomyopathy (ARVC)

BioCarta from NCI Cancer Genome Anatomy Project
h_cell2cellPathway - Cell to Cell Adhesion Signaling
h_integrinPathway - Integrin Signaling Pathway
h_ucalpainPathway - uCalpain and friends in Cell spread

-  Other Names for This Gene
  Alternate Gene Symbols: B4DZQ2, B4DZQ2_HUMAN, NM_001258371, NP_001245300, uc021qlz.1
UCSC ID: uc031qbp.1
RefSeq Accession: NM_001258371
Protein: B4DZQ2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001258371.1
exon count: 21CDS single in 3' UTR: no RNA size: 3086
ORF size: 2835CDS single in intron: no Alignment % ID: 99.87
txCdsPredict score: 3102.00frame shift in genome: no % Coverage: 99.90
has start codon: yes stop codon in genome: yes # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.